AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

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Colm Connolly
February 18, 2019 11:06AM
Hey,

I have some task data (only one run) from a subject that I've analyzed using afni_proc. There were three stimulus classes provided. The output of the out.ss_review.redacted.txt has me somewhat perplexed. Below, it clearly states that there were 13 TRs censored per run, but then even farther below that it says that there were 11 2 10 (=23) TRs censored per stimulus.

At most, in the case of one run, I would expect sum(#TRs censored per stim) <= # TRS censored per run, since some TRs to be included in the baseline could also be censored and would not be reflected in #TRs censored per stim. There has to be something amiss somewhere. Any idea where? 

subject ID                : MDD_1008
AFNI version              : AFNI_19.0.09
AFNI package              : linux_ubuntu_16_64
TRs removed (per run)     : 0
num stim classes provided : 3
final anatomy dset        : anat_final.MDD_1008+tlrc.HEAD
final stats dset          : stats.MDD_1008_REML+tlrc.HEAD
final voxel resolution    : 2.000000    2.000000        2.000000

motion limit              : 0.3
num TRs above mot limit   : 3
average motion (per TR)   : 0.0486667
average censored motion   : 0.0390909
max motion displacement   : 2.14551
max censored displacement : 1.86535
outlier limit             : 0.2
average outlier frac (TR) : 0.0249277
num TRs above out limit   : 10

num runs found            : 1
num TRs per run           : 254
num TRs per run (applied) : 241
num TRs per run (censored): 13
fraction censored per run : 0.0511811
TRs total (uncensored)    : 254
TRs total                 : 241
degrees of freedom used   : 20
degrees of freedom left   : 221

TRs censored              : 13
censor fraction           : 0.051181
num regs of interest      : 3
num TRs per stim (orig)   : 211 123 125
num TRs censored per stim : 11 2 10
fraction TRs censored     : 0.052 0.016 0.080
ave mot per sresp (orig)  : 0.044266 0.039016 0.048739
ave mot per sresp (cens)  : 0.034599 0.034229 0.032117

TSNR average              : 171.687
global correlation (GCOR) : 0.0397436
anat/EPI mask Dice coef   : 0.667881
maximum F-stat (masked)   : 9.38989
blur estimates (ACF)      : 0.849002 2.44407 10.7644
blur estimates (FWHM)     : 0 0 0
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Subject Author Posted

# censored TTs disagrees with #TRs censored per stimulus class

Colm Connolly February 18, 2019 11:06AM

Re: # censored TTs disagrees with #TRs censored per stimulus class

rick reynolds February 19, 2019 09:50AM